5bpd_ABCD : 3D-footprint complex

structure name	STRUCTURE OF TRMBL2, AN ARCHAEAL CHROMATIN PROTEIN, SHOWS A NOVEL MODE OF DNA BINDING.
reference	Diederichs et al. J.Mol.Biol. 427 3216 2015
source	PYROCOCCUS FURIOSUS
experiment	X-ray (resolution=2.40, R-factor=?)
structural superfamily	"Winged helix" DNA-binding domain;Phospholipase D/nuclease;
reference complex	5bpd_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5bpd_A interface=18,44,46,47,49,50, skdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYDvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietevpkygvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekaekv > 5bpd_B interface=18,44,46,47,49,50, skdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYDvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietevpkygvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekaek > 5bpd_C interface=18,44,46,47,49, skdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYdvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietevpvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekaekv > 5bpd_D interface=19,45,47,48,50, mskdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYdvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietekygvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekae
interface signature	YPPRYD/YPPRYD/YPPRY/YPPRY

Estimated binding specificities ?

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# IC=12.123 IC/col=0.638 n_of_columns=19

specificity:

A |  85   3  96   0   3  96  24  24  24  24  24  24  24   0  10  92   0  87   3
C |   3  14   0  14  85   0  24  24  24  24  24  24  24   0   5   0   0   3   3
G |   5   3   0   1   5   0  24  24  24  24  24  24  24   0  67   3   0   3   5
T |   3  76   0  81   3   0  24  24  24  24  24  24  24  96  14   1  96   3  85

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updated Thu Jun 25 02:17:13 2026